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zy-optimistic / GAEP

A genome assembly assessment pipeline.
GNU General Public License v3.0
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'gaep bkp' got stuck after generating the temp file, and no result file was generated; #8

Open wzxie opened 11 months ago

wzxie commented 11 months ago

Hello, l am using gaep bkp, but I have encountered a problem in this process, I hope to get your help, thanks very much.

my command is: gaep bkp -r test.fa -i ccs.fq.gz -x ccs -t 16 -d bkp -o test;

The bkp/mapping/TGS_mapping/test_TGS_mapping.bam generated, however, when calculating the breakpoint, a temp file is generated, and then the program will no longer respond, and there will be no log output.

Guessing it might be a problem with allocating multiple threads in the scripts/breakpoint_detection.pl file, but I can't solve it and hope to get your help.

Many thanks!

zy-optimistic commented 11 months ago

Thank you for your question, and I apologize for the delayed response. Could you please give me more details about your input file and the temporary file? I'm not sure about the issue due to the limited information available.